* The "alternate" opening to ''Series/StarTrekEnterprise'''s MirrorUniverse episode "In a Mirror Darkly" still says "Based on ''Franchise/StarTrek'' Created by GeneRoddenberry." Do we even want to ''know'' what ''that'' looked like?
** "Mirror, Mirror" gives a pretty good picture. And imagine all of Series/StarTrekVoyager with the evil crew from "Living Witness."
** Alternate-Archer from the Mirror Universe, over the course of the episode begins to experience vivid hallucinations and demonstrates progressively more erratic behaviour that according to Forrest was previously atypical from him. Did he suffer a psychotic break, or is he beginning to display several of the symptoms of Clarke's Syndrome, the illness that killed his regular-universe counterpart's father? If so, what does that bode for his counterpart?
*** Keep in mind, Arik Soong postulated a possible cure could exist and the Denobulans could have researched one, given how they aren't against genetic engineering like Starfleet. It ''is'' possible that in our universe, Archer ''could'' have developed the condition and been treated for it.
* When one looks at the evidence, the Xyrillians from "Unexpected" look very suspiciously like date-rapists. First, they stalk Enterprise remaining in their wake to avoid detection, only to claim their ship is broken down when caught. Any visitors experience a MushroomSamba due to their unique atmosphere, forcing them to take a nap for the better part of a day or two. In Tucker's case, he's shown the wonders of the holodeck and invited to play a game, which is actually their form of sex, essentially subjecting him to ''rape!'' (Which she later reveals she knew what she was doing). When their ship is finally fixed, they seem to be in quite a hurry to depart, only to run into the same mysterious "engine problems" a few days later when they're found trailing behind the Klingon's ship. Sound suspicious yet? How about the following line;
--> "We have a ''lot'' of experience dealing with alien visitors..."
* In "Doctor's Orders", Phlox is forced to remain awake while the rest of the crew are put into a coma to travel through a dangerous region of space. The problem however is that unlike the episode it's recycling, "One" from ''Voyager'', Seven lasted about three weeks before the isolation started causing her to hallucinate, before finally going off the deep end when the Doctor went offline. In this case of "Doctor's Orders" however, Phlox is only alone for four days and cracks up after ''two'' of them. Furthermore, it's stated that this hallucinations under extreme stress is considered normal for his species and is ''not'' a side effect of the region of space they are travelling through! In other words, this unintentionally paints the picture that Phlox's mental health is constantly teetering on the precipice of full-blown madness!
* Bearing in mind that "In a Mirror Darkly" shows us the mirror versions of Phlox and Reed are the agony booth's inventors, and that the first prototype of the booth was later destroyed along with the Enterprise, one of its inventors has to have survived; by Kirk's time, the agony booth had been propagated to all Terran vessels. Since Phlox was most likely executed for his attempt to sabotage the Defiant (and most certainly would not have given his executioners any help in making his execution more slow and painful than it was already likely to be), Reed, whom Phlox indicated stood an equal chance of dying or recovering after his near-fatal encounter with Slar the Gorn's booby trap, probably did ultimately recover.
* Many fans were irritated by the show's treatment of the Vulcans, which more or less made them a whole race of jerkasses. It does, however, give some interesting context to [[Series/StarTrekTheOriginalSeries Dr. [=McCoy's=]]] occasionally. . .uh. . .[[FantasticRacism uncomfortable]] comments to Spock.
* Are we ''really'' supposed to believe that the Humans willingly let the Vulcans stagnate their technological development for over 100 years? Granted they were desperate for allies and the Vulcans are (mostly) benevolent, but what exactly stopped Humanity from simply trading for a more advanced Warp Drives from another race? Does this mean that the Vulcans confiscated the vessels of anyone who tried? Surely this would have caused Humanity to tell them to go screw themselves and cut off all ties?
** ''Enterprise'' appears to suggest that before the the Enterprise expedition, humanity's knowledge of what is out there is quite... limited, to say the least (even the ''Tellarites'', who appear to be one of the local relative Great Powers, are unfamiliar to the non-T'Pol Enterprise crew as of season 2). Before you trade for a more advanced warp drive, you need to find someone willing (and able) to ''sell'' you a more advanced warp drive, after all.
** That being said, we know that Humanity's reach was at least 90 lights years prior to 2151, with Draylax and Vega Colony being some of the furthest locations explored, even before the Warp 2 Barrier was broken in 2143 [[note]]Merryweather was born on the several months long freight-run between those two places in 2126[[/note]]. Furthermore, we know that Humanity was in contact with both the Draylaxians and the Denobulans before the launch of ''Enterprise'' and possibly a few other races. Unless they all were still limited to Warp 1 and 2, it seems strange that there wasn't at least ''one'' enterprising alien businessman willing to flog human explorers a better engine?
** But what would humanity have to trade with? Seriously, we're a backwater hick planet with crappy everything. We probably had nothing worth the trader's time.
** While Earth is still a backwater, it appears quite wealthy and prosperous as of 2151, enough to end world hunger, disease and poverty. The Earth Cargo Service runs freight to various worlds, so clearly it's not like Earth doesn't have stuff other races aren't interested in? We even see Archer trade supplies for a bunch of kitchen spices in one episode! Taking two ships and selling one, even if for scrap metal and spare parts would earn more than enough for some better kit. Even the ''Ferengi'' figured this out and they were too stupid to invent warp themselves!
* I was all ready to post a thing on Headscratchers about the Vulcans using lirpas in the Forge rather than the Vulcan equivalent to assault rifles. I figured that as the properties of the Forge are known, they should at least have the Vulcan equivalent of park rangers trained in and armed with these weapons. But then I thought about it, and I realized a few things:
** 1. Given the significance of the Forge to the Vulcans, the Vulcan priests might well control the Forge rangers. To them, assault rifles or similar weapons would be emblematic of their pre-Surak days, and they would find them repugnant.
** 2. Even if they did have assault rifles, the Vulcan High Command would not trust these rangers to capture Archer, T'Pol, and T'Pau. If they saw them carrying the Kir'Shara, they might [[HeelFaceTurn switch sides]]. And none of their own troops would have reason to be trained to use such weapons. Instead, the High Command found a few trustworthy soldiers who were experts at the ancient Vulcan martial art of lirpa-fu, and sent them in.
*** Wasn't it mentioned however, that unique properties of the Forge causes interference with particle weapons, rendering them useless?
* While the writers clearly intended T'Pol's casting to be for fan service it ended up serving a better purpose, reinforcing one of the few themes they had working in the beginning. When Cochrane made first contact with the Vulcans, we who were masters of our realm were now children again and the Vulcans were adults, smarter and wiser about the new world we were about to enter. By Enterprise era, we're in our late adolescence, having grown up faster than our parents expected, chafing under their rules, ready to break out and explore the world on our own. But they were still smarter and wiser. This is all reinforced on the Enterprise with the adolescent acting Archer butting heads with the calm measured presence of T'Pol. She was smarter, more experienced and physically superior; a constant reminder that made the humans aboard feel somewhat inadequate. So it helps that she's also beautiful, which both makes all of that more visually present and makes her seem that much more superior, having seemingly no flaws. This is one instance in which a flawless character can serve the story.
* Zefram Cochrane's paraphrasing of the classic introduction from TOS and TNG may seem like a mere ContinuityNod at first. When given a little thought, you realize: Kirk based his speech upon Cochrane's! Picard more likely paraphrased from Kirk, but when you realize that the speech was first made by Cochrane it has much more meaning every time you hear it.
** While any fan is loathed to use "These Are the Voyages" as an example, it's subtly implied that the "modern" introduction may have been first paraphrased by Archer. Which means that he was the one most likely responsible for flubbing Cochrane's grammatically correct "let us go boldly", into the more famous version, "to boldly go".
*** I realize that this almost certainly wasn't the intention, but now that you point that out, I can't help but be reminded that probably the most famous flubbed line in American history also happens to be the most famous (though in no way less inspiring) flubbed line in real-life space exploration:
--->'''Neil Armstrong''': That's one small step for man, one giant leap for mankind.
*** Although Armstrong himself always claimed that he said "[[BeamMeUpScotty A Man]]", but this was lost in the (admittedly bad) transmission.
* In "Twilight", why did T'Pol [[DidNotThinkThisThrough foolishly decide]] to ram the docked Xindi ship into the other one, wrecking one nacelle and ultimately delay the mission long enough for the Xindi weapon to be launched? It was likely because by this point in the alternate timeline, she was suffering from the effects of Trellium-D, lowering her impulse control. This would also explain the smirk she adopts when she began ramming the ships.